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Conserved domains on  [gi|616690423|gb|KAE88007|]
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hypothetical protein W632_00734 [Staphylococcus aureus VET0402R]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 12204063)

helix-turn-helix (HTH) transcriptional regulator containing an AraC family DNA-binding HTH domain controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  1.10.10.1310
Gene Ontology:  GO:0006355|GO:0043565|GO:0003700
PubMed:  2644244|15808743|8831795
SCOP:  4000332

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
167-250 5.90e-21

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 5.90e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423   167 RLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITP 246
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 616690423   247 NEYR 250
Cdd:smart00342  81 SEYR 84
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
167-250 5.90e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 5.90e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423   167 RLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITP 246
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 616690423   247 NEYR 250
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
140-251 5.78e-19

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.14  E-value: 5.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 140 IAQNQYRYAYYGDLRDELEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTI 219
Cdd:COG2207  141 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSI 220

                         90       100       110
                 ....*....|....*....|....*....|..
gi 616690423 220 SNISEHLGFSSSSTYSKMFKSYMDITPNEYRN 251
Cdd:COG2207  221 SEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
HTH_18 pfam12833
Helix-turn-helix domain;
173-251 3.77e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.00  E-value: 3.77e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423  173 VADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILL-TTDSTISNISEHLGFSSSSTYSKMFKSYMDITPNEYRN 251
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10371 PRK10371
transcriptional regulator MelR;
157-260 2.13e-12

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 68.69  E-value: 2.13e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSK 236
Cdd:PRK10371 197 LGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYS 276

                         90       100
                 ....*....|....*....|....
gi 616690423 237 MFKSYMDITPNEYRNLSKFNKSIM 260
Cdd:PRK10371 277 TFGKYVGMSPQQYRKLSQQRRQTF 300
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
167-250 5.90e-21

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 87.61  E-value: 5.90e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423   167 RLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITP 246
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 616690423   247 NEYR 250
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
140-251 5.78e-19

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 87.14  E-value: 5.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 140 IAQNQYRYAYYGDLRDELEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTI 219
Cdd:COG2207  141 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSI 220

                         90       100       110
                 ....*....|....*....|....*....|..
gi 616690423 220 SNISEHLGFSSSSTYSKMFKSYMDITPNEYRN 251
Cdd:COG2207  221 SEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
HTH_18 pfam12833
Helix-turn-helix domain;
173-251 3.77e-14

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 68.00  E-value: 3.77e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423  173 VADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILL-TTDSTISNISEHLGFSSSSTYSKMFKSYMDITPNEYRN 251
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLeDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
PRK10371 PRK10371
transcriptional regulator MelR;
157-260 2.13e-12

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 68.69  E-value: 2.13e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSK 236
Cdd:PRK10371 197 LGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYS 276

                         90       100
                 ....*....|....*....|....
gi 616690423 237 MFKSYMDITPNEYRNLSKFNKSIM 260
Cdd:PRK10371 277 TFGKYVGMSPQQYRKLSQQRRQTF 300
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 157-251 5.40e-11

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 64.41  E-value: 5.40e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSK 236
Cdd:COG4977  216 QAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRR 295

                         90
                 ....*....|....*
gi 616690423 237 MFKSYMDITPNEYRN 251
Cdd:COG4977  296 AFRRRFGVSPSAYRR 310
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
158-251 2.81e-09

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 54.93  E-value: 2.81e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 158 EYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKM 237
Cdd:PRK10219  12 AWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRV 91

                         90
                 ....*....|....
gi 616690423 238 FKSYMDITPNEYRN 251
Cdd:PRK10219  92 FRRQFDRTPSDYRH 105
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
154-253 8.16e-09

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 57.29  E-value: 8.16e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 154 RDELEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSST 233
Cdd:PRK10572 186 REACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLY 265

                         90       100
                 ....*....|....*....|
gi 616690423 234 YSKMFKSYMDITPNEYRNLS 253
Cdd:PRK10572 266 FSRVFKKCTGASPSEFRARC 285
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
157-263 1.44e-08

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 53.57  E-value: 1.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSK 236
Cdd:PRK11511  15 LDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTR 94

                         90       100
                 ....*....|....*....|....*..
gi 616690423 237 MFKSYMDITPNEYRNLSKFNKSIMLNP 263
Cdd:PRK11511  95 TFKNYFDVPPHKYRMTNMQGESRFLHP 121
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 157-254 3.14e-07

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 53.13  E-value: 3.14e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEiLLTTDSTISNISEHLGFSSSSTYSK 236
Cdd:COG2169   90 CRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLSVTDAAYAAGFGSLSRFYE 168

                         90
                 ....*....|....*...
gi 616690423 237 MFKSYMDITPNEYRNLSK 254
Cdd:COG2169  169 AFKKLLGMTPSAYRRGGA 186
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 209-251 2.37e-06

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 44.84  E-value: 2.37e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 616690423  209 IEILLTTDSTISNISEHLGFSSSsTYSKMFKSYMDITPNEYRN 251
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRS-YFSRLFKKYTGVTPSQYRH 42
ftrA PRK09393
transcriptional activator FtrA; Provisional
 151-250 1.22e-03

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 41.49  E-value: 1.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 151 GDLRDELEYIYQNVNQRLTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSS 230
Cdd:PRK09393 218 DRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGS 297

                         90       100
                 ....*....|....*....|
gi 616690423 231 SSTYSKMFKSYMDITPNEYR 250
Cdd:PRK09393 298 EESLRHHFRRRAATSPAAYR 317
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
168-253 1.68e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 41.24  E-value: 1.68e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 168 LTLKSVADKLFVSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITPN 247
Cdd:PRK13500 223 FALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPS 302


                 ....*.
gi 616690423 248 EYRNLS 253
Cdd:PRK13500 303 QWRHLN 308
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
180-253 2.23e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.81  E-value: 2.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 616690423 180 SKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITPNEYRNLS 253
Cdd:PRK13502 205 SERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQWRHLS 278
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 157-250 6.05e-03

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 39.24  E-value: 6.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616690423 157 LEYIYQNVNQ-RLTLKSVADKLFVSKSNLSSQFHLlMGMGFKKYIDTLKIGKSIEIL--LTTDSTISNISEHLGFSSSST 233
Cdd:PRK09685 203 VALIDQSIQEeILRPEWIAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADDLrpAADDEKITSIAYKWGFSDSSH 281

                         90
                 ....*....|....*..
gi 616690423 234 YSKMFKSYMDITPNEYR 250
Cdd:PRK09685 282 FSTAFKQRFGVSPGEYR 298
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
179-250 7.50e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 39.12  E-value: 7.50e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 616690423 179 VSKSNLSSQFHLLMGMGFKKYIDTLKIGKSIEILLTTDSTISNISEHLGFSSSSTYSKMFKSYMDITPNEYR 250
Cdd:PRK13501 204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYR 275
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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